X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAnnotationLabels.java;h=bffa89a77912a96d3dd507de08e0fdd39505c848;hb=536f598943c69945bedda1b25cd1a205f2d48ea9;hp=7418e48f0de2a0204a002a2f864d212b1d5d3f76;hpb=3a45e0d68dde73c005832b7b3924194b214e00ff;p=jalview.git

diff --git a/src/jalview/gui/AnnotationLabels.java b/src/jalview/gui/AnnotationLabels.java
index 7418e48..bffa89a 100755
--- a/src/jalview/gui/AnnotationLabels.java
+++ b/src/jalview/gui/AnnotationLabels.java
@@ -128,10 +128,12 @@ public class AnnotationLabels extends JPanel implements MouseListener,
                 label = "";
             }
 
-            ap.av.alignment.addAnnotation(new AlignmentAnnotation(label,
+            AlignmentAnnotation newAnnotation = new AlignmentAnnotation(label,
                     "New description",
-                    new Annotation[ap.av.alignment.getWidth()]));
+                    new Annotation[ap.av.alignment.getWidth()]);
 
+            ap.av.alignment.addAnnotation(newAnnotation);
+            ap.av.alignment.setAnnotationIndex(newAnnotation, 0);
             dif = aa[aa.length - 1].height;
         }
         else if (evt.getActionCommand().equals(HIDE))
@@ -447,7 +449,7 @@ public class AnnotationLabels extends JPanel implements MouseListener,
 
                 if (aa[i].graph>0)
                 {
-                  if (aa[i].graphLines != null)
+                /*  if (aa[i].graphLines != null)
                   {
                     for (int gl = 0; gl < aa[i].graphLines.size(); gl++)
                     {
@@ -468,7 +470,7 @@ public class AnnotationLabels extends JPanel implements MouseListener,
                                  graphExtras);
                       g2.setStroke(new BasicStroke());
                     }
-                  }
+                  }*/
                     y += ((2 * aa[i].height) / 3);
                 }
                 else